[BioC] binary CEL file gunzipped

[James W. MacDonald]

Sean Davis wrote:
> On Friday 29 September 2006 14:59, D.Enrique ESCOBAR ESPINOZA wrote:
> 
>>I would like to know
>>how can I do to read binary.CEL.gz files
>>because R sends an error like this
>>Error in read.affybatch(filenames = l$filenames, phenoData =
>>l$phenoData,  :
>>	Is
>>/affylims/genechip/lots/VAGIN_29-04-05/gcos_files/R006-05FX7Z08C1-R1.CEL.gz
>>really a CEL file? tried reading as text, gzipped text and binary
>>Execution halted
> 
> 
> You might check the file sizes of .CEL files of the same chip.  You can get 
> this error if the .CEL file is corrupted in some way.

And if they really are gzipped binary celfiles, you will have to unzip 
them first. As the error says, ReadAffy() only reads in text, binary, 
and gzipped _text_ celfiles.

Best,

Jim


> 
> Sean
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor


-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623


**********************************************************
Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.